[R] Conflict command getSequence {biomaRt} and getSequence {seqinr} !!

[Pascal Oettli]

Hi,

You can write "biomaRt::getSequence" instead of "getSequence".

Hope this helps,
Pascal


Le 08/02/2013 15:07, Mohammad Tanvir Ahamed a écrit :
> Hi !
>
> Facing problem with " getSequence" commend .
> when only biomaRt package loaded the following example working well
>
>
>> mart <- useMart("ensembl",dataset="hsapiens_gene_ensembl")
>> seq = getSequence(id="BRCA1", type="hgnc_symbol", seqType="peptide", mart = mart)
>
> show(seq)
>
> but when i have loaded the seqinr, i got problem with same commend .
>
>> mart <- useMart("ensembl",dataset="hsapiens_gene_ensembl")
>> seq = getSequence(id="BRCA1", type="hgnc_symbol", seqType="peptide", mart = mart)
> Error in length(x) : 'x' is missing
>
> I need to use biomaRt and seqinr package together as i will use other commends from biomaRt  and seqinr package .
>
> Thanks .
>
>
>
> /.......Tanvir Ahamed
>
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